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mmu_circSgcz_195
Basic information of circular RNA
PanCircBase ID:
mmu_circSgcz_195
mm39_Chr. Position ID:
chr8|38420016|38420211|-
Gene name:
Sgcz
Transcript:
ENSMUST00000135764.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
1
Exon/intron indexes:
2
Exon/intron offsets:
0
Genomic length:
195
Exon/intron sizes in nt:
195
Flanking exon/introns:
chr8:38190290-38420016|chr8:38420211-39127878
Splice length:
195
Other database IDs:
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
ATGACTCGAGAACAATACATACTAGCCACACAGCAGAACAACCTGCCGAGACCTGAAAACGCACAACTCTACCCTGTGGGGATTTATGGATGGCGAAAGAGGTGCTTATACTTCTTTGTCCTTCTGCTGTTGGTTACCATGATAGTTAACTTAGCCATGACAATATGGATATTGAAGGTTATGAATTTCACTGTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCCTTCTGCTGTTGGTTACCA
59.23
CACAGGGTAGAGTTGTGCGT
59.97
155
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCCTTCTGCTGTTGGTTACCA
59.23
TTTCAGGTCTCGGCAGGTTG
60.25
135
PCR template sequence:
GAGGTGCTTATACTTCTTTGTCCTTCTGCTGTTGGTTACCATGATAGTTAACTTAGCCATGACAATATGGATATTGAAGGTTATGAATTTCACTGTGATGACTCGAGAACAATACATACTAGCCACACAGCAGAACAACCTGCCGAGACCTGAAAACGCACAACTCTACCCTGTGGGGATTTATGGATGGCGAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-128-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GAATTTCACTGTGATGACTCGAGAAC
siRNA sets
TTCTCGAGTCATCACAGTG, GTTCTCGAGTCATCACAGT, AGTCATCACAGTGAAATTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSGCZ_195_ORF_1
1.0254
0.00305926
0.373209698
390
ORF sequence:
ATGACTCGAGAACAATACATACTAGCCACACAGCAGAACAACCTGCCGAGACCTGAAAACGCACAACTCTACCCTGTGGGGATTTATGGATGGCGAAAGAGGTGCTTATACTTCTTTGTCCTTCTGCTGTTGGTTACCATGATAGTTAACTTAGCCATGACAATATGGATATTGAAGGTTATGAATTTCACTGTGATGACTCGAGAACAATACATACTAGCCACACAGCAGAACAACCTGCCGAGACCTGAAAACGCACAACTCTACCCTGTGGGGATTTATGGATGGCGAAAGAGGTGCTTATACTTCTTTGTCCTTCTGCTGTTGGTTACCATGATAGTTAACTTAGCCATGACAATATGGATATTGAAGGTTATGAATTTCACTGTG
Peptide sequence:
MTREQYILATQQNNLPRPENAQLYPVGIYGWRKRCLYFFVLLLLVTMIVNLAMTIWILKVMNFTVMTREQYILATQQNNLPRPENAQLYPVGIYGWRKRCLYFFVLLLLVTMIVNLAMTIWILKVMNFTV
IRESfinder result
IRESfinder score
0.510100194
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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